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Journal article
Genome‐wide analysis of epigenetic and transcriptional changes associated with heterosis in pigeonpea
Plant Biotechnology Journal, Vol.18(8), pp.1697-1710
2020
Abstract
Hybrids are extensively used in agriculture to deliver an increase in yield, yet the molecular basis of heterosis is not well understood. Global DNA methylation analysis, transcriptome analysis and small RNA profiling were aimed to understand the epigenetic effect of the changes in gene expression level in the two hybrids and their parental lines. Increased DNA methylation was observed in both the hybrids as compared to their parents. This increased DNA methylation in hybrids showed that majority of the 24‐nt siRNA clusters had higher expression in hybrids than the parents. Transcriptome analysis revealed that various phytohormones (auxin and salicylic acid) responsive hybrid‐MPV DEGs were significantly altered in both the hybrids in comparison to MPV. DEGs associated with plant immunity and growth were overexpressed whereas DEGs associated with basal defence level were repressed. This antagonistic patterns of gene expression might contribute to the greater growth of the hybrids. It was also noticed that some common as well as unique changes in the regulatory pathways were associated with heterotic growth in both the hybrids. Approximately 70% and 67% of down‐regulated hybrid‐MPV DEGs were found to be differentially methylated in ICPH 2671 and ICPH 2740 hybrid, respectively. This reflected the association of epigenetic regulation in altered gene expressions. Our findings also revealed that miRNAs might play important roles in hybrid vigour in both the hybrids by regulating their target genes, especially in controlling plant growth and development, defence and stress response pathways. The above finding provides an insight into the molecular mechanism of pigeonpea heterosis.
Details
- Title
- Genome‐wide analysis of epigenetic and transcriptional changes associated with heterosis in pigeonpea
- Authors/Creators
- P. Sinha (Author/Creator) - International Crops Research Institute for the Semi-Arid TropicsV.K. Singh (Author/Creator) - International Crops Research Institute for the Semi-Arid TropicsR.K. Saxena (Author/Creator) - International Crops Research Institute for the Semi-Arid TropicsS.M. Kale (Author/Creator) - International Crops Research Institute for the Semi-Arid TropicsY. Li (Author/Creator) - BGI (United States)V. Garg (Author/Creator) - International Crops Research Institute for the Semi-Arid TropicsT. Meifang (Author/Creator) - BGI (United States)A.W. Khan (Author/Creator) - International Crops Research Institute for the Semi-Arid TropicsK.D. Kim (Author/Creator) - Myongji UniversityA. Chitikineni (Author/Creator) - International Crops Research Institute for the Semi-Arid TropicsK.B. Saxena (Author/Creator) - International Crops Research Institute for the Semi-Arid TropicsC.V. Sameer Kumar (Author/Creator)X. Liu (Author/Creator) - BGI (United States)X. Xu (Author/Creator) - BGI (United States)S. Jackson (Author/Creator) - University of GeorgiaW. Powell (Author/Creator) - Scotland's Rural CollegeE. Nevo (Author/Creator) - University of HaifaI.R. Searle (Author/Creator) - The University of AdelaideM. Lodha (Author/Creator) - Centre for Cellular and Molecular BiologyR.K. Varshney (Author/Creator) - International Crops Research Institute for the Semi-Arid Tropics
- Publication Details
- Plant Biotechnology Journal, Vol.18(8), pp.1697-1710
- Publisher
- Society for Experimental Biology and The Association of Applied Biologists and John Wiley & Sons Ltd.
- Identifiers
- 991005544699407891
- Copyright
- © 2020 The Authors.
- Murdoch Affiliation
- Murdoch University; State Agricultural Biotechnology Centre; Centre for Crop and Food Innovation
- Language
- English
- Resource Type
- Journal article
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- Collaboration types
- Domestic collaboration
- International collaboration
- Citation topics
- 3 Agriculture, Environment & Ecology
- 3.4 Crop Science
- 3.4.96 QTL
- Web Of Science research areas
- Biotechnology & Applied Microbiology
- Plant Sciences
- ESI research areas
- Plant & Animal Science